The cacao Criollo genome v2.0: an improved version of the genome for genetic and functional genomic studies

Abstract : Background: Theobroma cacao L., native to the Amazonian basin of South America, is an economically important fruit tree crop for tropical countries as a source of chocolate. The first draft genome of the species, from a Criollo cultivar, was published in 2011. Although a useful resource, some improvements are possible, including identifying misassemblies, reducing the number of scaffolds and gaps, and anchoring un-anchored sequences to the 10 chromosomes. Methods: We used a NGS-based approach to significantly improve the assembly of the Belizian Criollo B97-61/B2 genome. We combined four Illumina large insert size mate paired libraries with 52x of Pacific Biosciences long reads to correct misassembled regions and reduced the number of scaffolds. We then used genotyping by sequencing (GBS) methods to increase the proportion of the assembly anchored to chromosomes.
Liste complète des métadonnées

Littérature citée [29 références]  Voir  Masquer  Télécharger

https://hal-lirmm.ccsd.cnrs.fr/lirmm-01612258
Contributeur : Eric Rivals <>
Soumis le : vendredi 6 octobre 2017 - 16:03:22
Dernière modification le : jeudi 24 mai 2018 - 15:59:22
Document(s) archivé(s) le : lundi 8 janvier 2018 - 15:04:09

Fichier

cacao-genome-bmc-genomics-2017...
Fichiers produits par l'(les) auteur(s)

Licence


Distributed under a Creative Commons Paternité 4.0 International License

Identifiants

Citation

Xavier Argout, Guillaume Martin, Gaetan Droc, Olivier Fouet, Karine Labadie, et al.. The cacao Criollo genome v2.0: an improved version of the genome for genetic and functional genomic studies. BMC Genomics, BioMed Central, 2017, 18 (1), pp.730-739. 〈10.1186/s12864-017-4120-9〉. 〈lirmm-01612258〉

Partager

Métriques

Consultations de la notice

441

Téléchargements de fichiers

50